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I am trying to generate Haplotype using shapeit but everytime it says shapeit command not found ..why ?

I am trying to generate Haplotype using shapeit but everytime it says shapeit command not found ..why

haplotype
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updated by Ram Ram • written by Being Bioinformatician Being Bioinformatician

Have you added the executable file shapeit to your /bin/ directory?

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written by iraun iraun

1 answer

Based on what you write, shapeit is not in $PATH (the location in which your shell will look for executables) Where did you install it? An easy solution is to put a shortlink in your bin folder, e.g.: (or to any other folder listed in $PATH, check with

ln -s /path/to/where/you/extracted/shapeit ~/bin/

or to any other folder listed in $PATH, check with:

echo $PATH
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written by WouterDeCoster WouterDeCoster

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